Glutamate Receptor, Ionotropic Kainate 2

(All numbering and residues are taken from first PDB file)

Run Details Domains Sequence Morph Domain Pairs Contact Graph

DynDom run details

  Property   Value
  Name Glutamate Receptor, Ionotropic Kainate 2
  Conformer 1
(PDB)
4h8i (B)
  Conformer 2
(PDB)
1ycj (A)
  Window Length 5
  Minimum ratio 1.0
  Minimum domain size 20

Domains

Domain Size Backbone RMSD
(A)
Residues
1 139 1.04   5 - 108   215 - 250
2 106 0.67   109 - 214

Sequence


           ________________________________________________________________________________________________________107_____________ 
 4h8i(B) : **NRSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKGTP 
         :                                                                                                                          
 1ycj(A) : GANRTLIVTTILEEPYVMYRKSDKPLYGNDRFEGYCLDLLKELSNILGFLYDVKLVPDGKYGAQND-KGEWNGMVKELIDHRADLAVAPLTITYVREKVIDFSKPFMTLGISILYRKGTP 
           ________________________________________________________________________________________________________534_____________ 

           _________________________________________________________________________________________212____________________________ 
 4h8i(B) : IDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQE 
         :                                                                                                                          
 1ycj(A) : IDSADDLAKQTKIEYGAVRDGSTMTFFKKSKISTYEKMWAFMSSRQQSALVKNSDEGIQRVLTTDYALLMESTSIEYVTQRNCNLTQIGGLIDSKGYGVGTPIGSPYRDKITIAILQLQE 
           _________________________________________________________________________________________759____________________________ 

           __________________                                                                                                       
 4h8i(B) : EGKLHMMKEKWWRGNGCP                                                                                                       
         :                                                                                                                          
 1ycj(A) : EGKLHMMKEKWW******                                                                                                       
           __________________                                                                                                       

Morph

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Domain Pairs

Property Value
Fixed Domain
( blue )
1
Moving Domain
( red )
2
Rotation Angle
(deg)
26.1
Translation
(A)
0.2
Closure
(%)
100.0
Bending Residues
( green )
  107 - 111
  212 - 215
Bending Region Analysis

Dynamic Contact Graph

Conformer 1 Contact:
Residue 1 ———› Residue 2

Conformer 2 Contact:
Residue 2 ———› Residue 1

Movement classification: Hinge

PyMOL Script

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